Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 10629029
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 51
Found at i:3870274 original size:24 final size:25
Alignment explanation
Indices: 3870242--3870295 Score: 92
Period size: 24 Copynumber: 2.2 Consensus size: 25
3870232 TAAAACCTTG
*
3870242 ATGTTCTTTATTTTCTTTTTC-TTT
1 ATGTTCTTTATTTTCTTTTTCGATT
3870266 ATGTTCTTTATTTTCTTTTTCGATT
1 ATGTTCTTTATTTTCTTTTTCGATT
3870291 ATGTT
1 ATGTT
3870296 TATTTGTATG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 21 0.75
25 7 0.25
ACGTcount: A:0.11, C:0.11, G:0.07, T:0.70
Consensus pattern (25 bp):
ATGTTCTTTATTTTCTTTTTCGATT
Found at i:3874235 original size:18 final size:18
Alignment explanation
Indices: 3874209--3874249 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
3874199 GAGCTCTTGA
*
3874209 AGTTTTTGAGCTTTTTCG
1 AGTTCTTGAGCTTTTTCG
3874227 AGTTCTTGAGCTTTTTCG
1 AGTTCTTGAGCTTTTTCG
3874245 AGTTC
1 AGTTC
3874250 GAGTTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.12, C:0.15, G:0.22, T:0.51
Consensus pattern (18 bp):
AGTTCTTGAGCTTTTTCG
Found at i:3876397 original size:19 final size:19
Alignment explanation
Indices: 3876342--3876397 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 19
3876332 TAACAGGTTA
*
3876342 ATTTA-AATAAAAATGATA-
1 ATTTATAAT-AAAATAATAG
* *
3876360 ATTTATTAT-AAATATTAG
1 ATTTATAATAAAATAATAG
3876378 ATTTATAATAAAATAATAG
1 ATTTATAATAAAATAATAG
3876397 A
1 A
3876398 AACTTTAAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
17 6 0.20
18 13 0.43
19 11 0.37
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
ATTTATAATAAAATAATAG
Found at i:3877025 original size:31 final size:31
Alignment explanation
Indices: 3876990--3877088 Score: 101
Period size: 32 Copynumber: 3.1 Consensus size: 31
3876980 TTGATCTAAA
* *
3876990 CCGAAAATCAACTTATTGATATTGACCCGAC
1 CCGAAAATCAACTAATTGGTATTGACCCGAC
* *
3877021 CCG-AAATCTAACTGATTCGGTATTAACCCGAC
1 CCGAAAATC-AACTAATT-GGTATTGACCCGAC
* * *
3877053 CCAAAAATCAACCAATCTGGTATTGACCTGAC
1 CCGAAAATCAACTAAT-TGGTATTGACCCGAC
3877085 CCGA
1 CCGA
3877089 TATTGACTCG
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
30 5 0.09
31 10 0.18
32 34 0.62
33 6 0.11
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.23
Consensus pattern (31 bp):
CCGAAAATCAACTAATTGGTATTGACCCGAC
Found at i:3880894 original size:14 final size:15
Alignment explanation
Indices: 3880856--3880901 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 15
3880846 TTGTATGTTT
* *
3880856 ATAATTCATTAACCA
1 ATAAATCATAAACCA
*
3880871 ATAAACCATAAACC-
1 ATAAATCATAAACCA
3880885 ATAAATCATAAA-CA
1 ATAAATCATAAACCA
3880899 ATA
1 ATA
3880902 GCCCAATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 1 0.04
14 14 0.54
15 11 0.42
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.24
Consensus pattern (15 bp):
ATAAATCATAAACCA
Found at i:3881059 original size:61 final size:61
Alignment explanation
Indices: 3880964--3881078 Score: 178
Period size: 61 Copynumber: 1.9 Consensus size: 61
3880954 GTAGTGCTAA
*
3880964 ACCTACACTAAGCTTACACCATAGTGCTAATCCGGATATGACACATAAGGTCGTGCCCACC
1 ACCTACACTAAGCTTACACCATAGTGCTAATCCGGACATGACACATAAGGTCGTGCCCACC
* * *
3881025 ACCTACACTAGGTTTACACTC-TAGTGCTAATCCGGACATGATACATAAGGTCGT
1 ACCTACACTAAGCTTACAC-CATAGTGCTAATCCGGACATGACACATAAGGTCGT
3881079 ATCCACCTTC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
61 48 0.98
62 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (61 bp):
ACCTACACTAAGCTTACACCATAGTGCTAATCCGGACATGACACATAAGGTCGTGCCCACC
Found at i:3881446 original size:24 final size:24
Alignment explanation
Indices: 3881414--3881462 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
3881404 AGTCTTCCTG
*
3881414 ATGATGTATAAAACTTCTATGTAC
1 ATGATGTATAAAACATCTATGTAC
3881438 ATGATGTATAAAACATCTATGTAC
1 ATGATGTATAAAACATCTATGTAC
3881462 A
1 A
3881463 ATGTCATGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (24 bp):
ATGATGTATAAAACATCTATGTAC
Found at i:3882887 original size:29 final size:31
Alignment explanation
Indices: 3882855--3882913 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
3882845 TTGGTCCCTT
* *
3882855 AACTTT-CAAAGT-TTATACTTTGATCACTA
1 AACTTTACAAAATCTTATAATTTGATCACTA
*
3882884 AACTTTACAAAATCTTATAATTTGGTCACT
1 AACTTTACAAAATCTTATAATTTGATCACT
3882914 CACTGAATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 6 0.24
30 5 0.20
31 14 0.56
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.41
Consensus pattern (31 bp):
AACTTTACAAAATCTTATAATTTGATCACTA
Found at i:3882913 original size:31 final size:29
Alignment explanation
Indices: 3882844--3882913 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
3882834 AAATTACCAT
* * * *
3882844 TTTGGTCCCTTAACTTTCAAAGTTTATAC
1 TTTGGTCACTAAACTTTCAAAATTTATAA
*
3882873 TTTGATCACTAAACTTTACAAAATCTTATAA
1 TTTGGTCACTAAACTTT-CAAAAT-TTATAA
3882904 TTTGGTCACT
1 TTTGGTCACT
3882914 CACTGAATTC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 14 0.42
30 5 0.15
31 14 0.42
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.43
Consensus pattern (29 bp):
TTTGGTCACTAAACTTTCAAAATTTATAA
Found at i:3884954 original size:25 final size:25
Alignment explanation
Indices: 3884898--3884955 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
3884888 TCTTTAGAGC
* *
3884898 TTCCAAACTTTCTTGGAATTTCTCA
1 TTCCAAGCTCTCTTGGAATTTCTCA
3884923 TTCCAAGCTCTCTTGGAATTTCTCA
1 TTCCAAGCTCTCTTGGAATTTCTCA
3884948 TTCCAAGC
1 TTCCAAGC
3884956 AAATGAAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.22, C:0.28, G:0.10, T:0.40
Consensus pattern (25 bp):
TTCCAAGCTCTCTTGGAATTTCTCA
Found at i:3887121 original size:23 final size:23
Alignment explanation
Indices: 3887090--3887135 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
3887080 AAGTATATAC
*
3887090 TTAGTGAGGCAATTAAAAACAAT
1 TTAGCGAGGCAATTAAAAACAAT
3887113 TTAGCGAGGCAATTAAAAACAAT
1 TTAGCGAGGCAATTAAAAACAAT
3887136 AAACAGTGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.48, C:0.11, G:0.17, T:0.24
Consensus pattern (23 bp):
TTAGCGAGGCAATTAAAAACAAT
Found at i:3887146 original size:22 final size:23
Alignment explanation
Indices: 3887095--3887147 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
3887085 TATACTTAGT
* *
3887095 GAGGCAATTAAAAACAATTTAGC
1 GAGGCAATTAAAAACAATTAAAC
3887118 GAGGCAATTAAAAACAA-TAAAC
1 GAGGCAATTAAAAACAATTAAAC
3887140 -AGTGCAAT
1 GAG-GCAAT
3887148 ACAACTCATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 2 0.07
22 8 0.30
23 17 0.63
ACGTcount: A:0.51, C:0.13, G:0.17, T:0.19
Consensus pattern (23 bp):
GAGGCAATTAAAAACAATTAAAC
Found at i:3887903 original size:24 final size:24
Alignment explanation
Indices: 3887870--3887942 Score: 128
Period size: 24 Copynumber: 3.0 Consensus size: 24
3887860 AGTCTTCCTG
*
3887870 ATGATGTATAAAACATCTATGTGC
1 ATGATGTATAAAACATCTATGTAC
*
3887894 TTGATGTATAAAACATCTATGTAC
1 ATGATGTATAAAACATCTATGTAC
3887918 ATGATGTATAAAACATCTATGTAC
1 ATGATGTATAAAACATCTATGTAC
3887942 A
1 A
3887943 ATGTCATGCA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (24 bp):
ATGATGTATAAAACATCTATGTAC
Found at i:3889351 original size:30 final size:29
Alignment explanation
Indices: 3889300--3889388 Score: 72
Period size: 30 Copynumber: 2.9 Consensus size: 29
3889290 GACCAATTAT
* *
3889300 AACTTTTCAAAATTACCATTTTGGTC-CCTA
1 AACTTTTCAAATTTA-TATTTTGGTCACC-A
**
3889330 AACTTTTCAAAGTTTATATTTTAATCACCA
1 AACTTTTCAAA-TTTATATTTTGGTCACCA
* *
3889360 AACTTTACAAAATCTTATAATTTGGTCAC
1 AACTTTTC-AAAT-TTATATTTTGGTCAC
3889389 TCACTAAATC
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
30 27 0.57
31 20 0.43
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.40
Consensus pattern (29 bp):
AACTTTTCAAATTTATATTTTGGTCACCA
Found at i:3891745 original size:30 final size:30
Alignment explanation
Indices: 3891705--3891762 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
3891695 AAAATCATTG
* *
3891705 ACTTCACTTTGCACACTTTTATTCTCTTTC
1 ACTTCACTTTGCACACTTTCACTCTCTTTC
*
3891735 ACTTCGCTTTGCACACTTTCACTCTCTT
1 ACTTCACTTTGCACACTTTCACTCTCTT
3891763 CCAATAGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.16, C:0.33, G:0.05, T:0.47
Consensus pattern (30 bp):
ACTTCACTTTGCACACTTTCACTCTCTTTC
Found at i:3907616 original size:21 final size:22
Alignment explanation
Indices: 3907590--3907630 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
3907580 TCAGGACAGG
3907590 GAGTATCGATAC-TCCTTTAAT
1 GAGTATCGATACTTCCTTTAAT
3907611 GAGTATCGATACTTCCTTTA
1 GAGTATCGATACTTCCTTTA
3907631 TAGTATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.39
Consensus pattern (22 bp):
GAGTATCGATACTTCCTTTAAT
Found at i:3911547 original size:54 final size:54
Alignment explanation
Indices: 3911438--3911597 Score: 198
Period size: 54 Copynumber: 2.9 Consensus size: 54
3911428 TCCGAGACAC
* *
3911438 TGGTGCAAGTGTCCGACAGAGAGGTTCAAGACAGAGGATCGGGCTTGCCAAGATAT
1 TGGTGCAAGTGTCCGACA-AGA-GTTCAAGATAGAGTATCGGGCTTGCCAAGATAT
*
3911494 TGGTGCAAGTGTCCGACAATGAGTT-AAGATAGAGTATCGGGCTTGCTAAGATAT
1 TGGTGCAAGTGTCCGACAA-GAGTTCAAGATAGAGTATCGGGCTTGCCAAGATAT
* * * *
3911548 TGGTGCAAGAGTCCGAAAAGGAATCTCAAGATAG-TTATCGGGCTTGCCAA
1 TGGTGCAAGTGTCCGACAA-GAGT-TCAAGATAGAGTATCGGGCTTGCCAA
3911598 AGCCACCAGA
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
54 46 0.50
55 19 0.21
56 27 0.29
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (54 bp):
TGGTGCAAGTGTCCGACAAGAGTTCAAGATAGAGTATCGGGCTTGCCAAGATAT
Found at i:3915327 original size:56 final size:54
Alignment explanation
Indices: 3915256--3915390 Score: 155
Period size: 54 Copynumber: 2.5 Consensus size: 54
3915246 CTTGGGTCTG
* * * *
3915256 AGACACTGGTGCAAGTGTCTGACAGA-GAGGTTCAAGACAGAGGATCGGGCTTGCCA
1 AGACATTGGTGCAAGTGTCCGA-AAATGA-GTT-AAGACAGAGGATCAGGCTTGCCA
* * * *
3915312 AGACATTGATGCAAGTGTCCGAAAATGAGTTAAGATAGAGTATCAGGCTTGCTA
1 AGACATTGGTGCAAGTGTCCGAAAATGAGTTAAGACAGAGGATCAGGCTTGCCA
*
3915366 AGACATTGGTGCAAGAGTCCGAAAA
1 AGACATTGGTGCAAGTGTCCGAAAA
3915391 GGAATCTCAA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
54 42 0.62
55 5 0.07
56 21 0.31
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (54 bp):
AGACATTGGTGCAAGTGTCCGAAAATGAGTTAAGACAGAGGATCAGGCTTGCCA
Found at i:3920068 original size:19 final size:19
Alignment explanation
Indices: 3920044--3920081 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
3920034 TCATTGGAGA
3920044 CTTGTTATTTTGTTTAACT
1 CTTGTTATTTTGTTTAACT
3920063 CTTGTTATTTTGTTTAACT
1 CTTGTTATTTTGTTTAACT
3920082 GTTTAAGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.11, G:0.11, T:0.63
Consensus pattern (19 bp):
CTTGTTATTTTGTTTAACT
Found at i:3923554 original size:13 final size:13
Alignment explanation
Indices: 3923538--3923569 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
3923528 TTTAATTGCA
3923538 AAAATTAAAAATT
1 AAAATTAAAAATT
*
3923551 AAAATTAAAATTT
1 AAAATTAAAAATT
3923564 AAAATT
1 AAAATT
3923570 TCGATTCGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AAAATTAAAAATT
Found at i:3923747 original size:10 final size:10
Alignment explanation
Indices: 3923688--3923800 Score: 59
Period size: 10 Copynumber: 10.6 Consensus size: 10
3923678 CAATAATAAT
3923688 AAAAATAAAA
1 AAAAATAAAA
*
3923698 AAATAGATAAAT
1 AAA-A-ATAAAA
*
3923710 AAAGATAAATA
1 AAAAATAAA-A
*
3923721 AATTTAATAAAA
1 AA--AAATAAAA
3923733 AAAAA-AAAA
1 AAAAATAAAA
3923742 ATAAAA-AAAA
1 A-AAAATAAAA
*
3923752 ACAAATTAAAA
1 A-AAAATAAAA
3923763 ATAAAATAAAA
1 A-AAAATAAAA
* * *
3923774 TAATAGTAATA
1 -AAAAATAAAA
3923785 AAAAATAAAA
1 AAAAATAAAA
*
3923795 TAAAAT
1 AAAAAT
3923801 GAAACGAAAA
Statistics
Matches: 78, Mismatches: 17, Indels: 16
0.70 0.15 0.14
Matches are distributed among these distances:
9 5 0.06
10 34 0.44
11 22 0.28
12 12 0.15
13 5 0.06
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.19
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:3923769 original size:26 final size:26
Alignment explanation
Indices: 3923679--3923799 Score: 84
Period size: 26 Copynumber: 4.5 Consensus size: 26
3923669 TTAATATAAC
*
3923679 AATAATAATAAAAATAAAA-AAATAGATA
1 AATAA-AATAAAAA-AAAACAAATA-AAA
* *
3923707 AATAAAGATAAATAAATTTAATAAA-AAAA
1 AATAAA-ATAAA-AAA--AAACAAATAAAA
* *
3923736 AAAAAAATAAAAAAAAACAAATTAAA
1 AATAAAATAAAAAAAAACAAATAAAA
* * **
3923762 AATAAAATAAAATAATAGTAATAAAA
1 AATAAAATAAAAAAAAACAAATAAAA
3923788 AATAAAATAAAA
1 AATAAAATAAAA
3923800 TGAAACGAAA
Statistics
Matches: 75, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
25 5 0.07
26 35 0.47
27 4 0.05
28 16 0.21
29 9 0.12
30 3 0.04
31 3 0.04
ACGTcount: A:0.77, C:0.01, G:0.02, T:0.20
Consensus pattern (26 bp):
AATAAAATAAAAAAAAACAAATAAAA
Found at i:3923800 original size:26 final size:26
Alignment explanation
Indices: 3923732--3923819 Score: 88
Period size: 26 Copynumber: 3.3 Consensus size: 26
3923722 ATTTAATAAA
* *
3923732 AAAAAAAAAAATAAAAAAAAACAAAT
1 AAAAAATAAAATAAAATAAAACAAAT
* * **
3923758 TAAAAATAAAATAAAATAATAGTAAT
1 AAAAAATAAAATAAAATAAAACAAAT
*
3923784 AAAAAATAAAATAAAATGAAACGAAA-
1 AAAAAATAAAATAAAATAAAAC-AAAT
3923810 AAAAAGATAA
1 AAAAA-ATAA
3923820 GGTTTGTTGA
Statistics
Matches: 49, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
26 43 0.88
27 6 0.12
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (26 bp):
AAAAAATAAAATAAAATAAAACAAAT
Found at i:3924726 original size:85 final size:85
Alignment explanation
Indices: 3924588--3925086 Score: 626
Period size: 85 Copynumber: 5.9 Consensus size: 85
3924578 TCTCGACTCA
* * ** * * * *
3924588 AGCTAAGCTATAAATTTGACATGCCCTTGAGCTGAATGGAATCGAACTAGAAGGTATTTGTTGAC
1 AGCTATGCTGTAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGAC
3924653 AGATAACCCTTCTCGCCTTG
66 AGATAACCCTTCTCGCCTTG
* * * * *
3924673 AGCTATGCTGTAAATTTGATATGCTTTTGGGCTGAATGTAATCAAACTCGAAGGTCTTTGCTGAC
1 AGCTATGCTGTAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGAC
*
3924738 AGATAACCCTTCTTGCCTTG
66 AGATAACCCTTCTCGCCTTG
* * * * * * *
3924758 AGTTATGATGTAAATTTGACGTGCCTTTGAGCTGAATATAATCGAACTCGAAGGTTTTTTATTCA
1 AGCTATGCTGTAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGG-TCTTTGTTGA
* * *
3924823 CAGTTAGCCCTTCTCGCTTTG
65 CAGATAACCCTTCTCGCCTTG
* * * *
3924844 AGCTATGTTGTAAATTTGATGTGCCTTTGAGCTGAGTATAATCGAACTCGAAGGTCTTGGTTGAC
1 AGCTATGCTGTAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGAC
*
3924909 AGAT-ACTCTTCTCGCCTTG
66 AGATAACCCTTCTCGCCTTG
* * * * * * *
3924928 AGTTTTGCTATAAGTTTGATGTGCCTTTGAGCTGAAAGTAATCAAACTCAAAGGTC-TT-TTGAC
1 AGCTATGCTGTAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGAC
*
3924991 AGATAGCCCTTCTCGCCTTG
66 AGATAACCCTTCTCGCCTTG
*
3925011 AGCTATGCTGTAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCAAAGGTCTTTGTTGAC
1 AGCTATGCTGTAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGAC
3925076 AGATAACCCTT
66 AGATAACCCTT
3925087 TCATCTTGAG
Statistics
Matches: 350, Mismatches: 60, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
82 9 0.03
83 64 0.18
84 60 0.17
85 144 0.41
86 73 0.21
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (85 bp):
AGCTATGCTGTAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGAC
AGATAACCCTTCTCGCCTTG
Found at i:3924963 original size:170 final size:168
Alignment explanation
Indices: 3924594--3925106 Score: 654
Period size: 167 Copynumber: 3.0 Consensus size: 168
3924584 CTCAAGCTAA
* * ** * * *
3924594 GCTATAAATTTGACATGCCCTTGAGCTGAATGGAATCGAACTAGAAGGTATTTGTTGACAGATAA
1 GCTATAAATTTGACGTGCCTTTGAGCTGAATATAATCGAACTCGAAGGT-TTTTTTGACAGATAG
* * * *
3924659 CCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCTTTTGGGCTGAATGTAATCAAACTCGA
65 CCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGA
* *
3924724 AGGTCTTTGCTGACAGATAACCCTTCTTGCCTTGAGTTAT
130 AGGTCTTTGTTGACAGAT-ACCCTTCTCGCCTTGAGTTAT
* * * *
3924764 GATGTAAATTTGACGTGCCTTTGAGCTGAATATAATCGAACTCGAAGGTTTTTTATTCACAGTTA
1 GCTATAAATTTGACGTGCCTTTGAGCTGAATATAATCGAACTCGAAGG-TTTTT-TTGACAGATA
* * * *
3924829 GCCCTTCTCGCTTTGAGCTATGTTGTAAATTTGATGTGCCTTTGAGCTGAGTATAATCGAACTCG
64 GCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCG
* * *
3924894 AAGGTCTTGGTTGACAGATACTCTTCTCGCCTTGAGTTTT
129 AAGGTCTTTGTTGACAGATACCCTTCTCGCCTTGAGTTAT
* * * * *
3924934 GCTATAAGTTTGATGTGCCTTTGAGCTGAA-AGTAATCAAACTCAAAGG-TCTTTTGACAGATAG
1 GCTATAAATTTGACGTGCCTTTGAGCTGAATA-TAATCGAACTCGAAGGTTTTTTTGACAGATAG
*
3924997 CCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCAA
65 CCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGA
**
3925062 AGGTCTTTGTTGACAGATAACCCTT-TCATCTTGAGTTAT
130 AGGTCTTTGTTGACAGAT-ACCCTTCTCGCCTTGAGTTAT
*
3925101 GTTATA
1 GCTATA
3925107 CTTGGCTGGG
Statistics
Matches: 295, Mismatches: 44, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
167 102 0.35
168 8 0.03
169 1 0.00
170 102 0.35
171 82 0.28
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.35
Consensus pattern (168 bp):
GCTATAAATTTGACGTGCCTTTGAGCTGAATATAATCGAACTCGAAGGTTTTTTTGACAGATAGC
CCTTCTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAA
GGTCTTTGTTGACAGATACCCTTCTCGCCTTGAGTTAT
Found at i:3925479 original size:124 final size:124
Alignment explanation
Indices: 3925259--3925566 Score: 517
Period size: 124 Copynumber: 2.5 Consensus size: 124
3925249 TGGCACGATA
* * * *
3925259 TCCTTCATCGTGAAGTTGAGCTTTGAATTAGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAG
1 TCCTTCGTTGTGAAGTTGAGCTTTGAATTGGATATCATTCGTTGTGAAGTTGAAATCCAATCTAG
* *
3925324 AGATGGATGTTTCTTGTGGGCACGATATCCTTCATCGTGAAGTTGAAATCGTGGATGGC
66 AGATGGATGCTACTTGTGGGCACGATATCCTTCATCGTGAAGTTGAAATCGTGGATGGC
3925383 TCCTTCGTTGTGAAGTTGAGCTTTGAATTGGATATCATTCGTTGTGAAGTTGAAATCCAATCTAG
1 TCCTTCGTTGTGAAGTTGAGCTTTGAATTGGATATCATTCGTTGTGAAGTTGAAATCCAATCTAG
* *
3925448 AGATGGATGCTACTTGTGGGCATGATATCCTTCATTGTGAAGTTGAAATCGTGGATGGC
66 AGATGGATGCTACTTGTGGGCACGATATCCTTCATCGTGAAGTTGAAATCGTGGATGGC
* * *
3925507 TCATTCGTTGTGATGTTGAGCTTTGAATTGGATATCATTCGTTGTAAAGTTGAAATCCAA
1 TCCTTCGTTGTGAAGTTGAGCTTTGAATTGGATATCATTCGTTGTGAAGTTGAAATCCAA
3925567 GGGTTGTTTC
Statistics
Matches: 173, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
124 173 1.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (124 bp):
TCCTTCGTTGTGAAGTTGAGCTTTGAATTGGATATCATTCGTTGTGAAGTTGAAATCCAATCTAG
AGATGGATGCTACTTGTGGGCACGATATCCTTCATCGTGAAGTTGAAATCGTGGATGGC
Found at i:3926840 original size:95 final size:95
Alignment explanation
Indices: 3926676--3926861 Score: 259
Period size: 95 Copynumber: 2.0 Consensus size: 95
3926666 CTGCTCAATA
* * * *
3926676 TATAAACACCTTTATCAGGTTAGTTGAATCTTATCCATAAAGTCGGGGAGTTTAACCAATTGCCT
1 TATAAACACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGTCCGAGAGTTTAACCAATTGCCT
*
3926741 TAGAGTGACAACTCAAGCTTTATTGTATAG
66 TAGAGGGACAACTCAAGCTTTATTGTATAG
* *
3926771 TATAATCACCTTTATCAGGCTAGCTGAATCTTATTCATAAAG-CCGAGACGTTTAACCAATTG-C
1 TATAAACACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGTCCGAGA-GTTTAACCAATTGCC
**
3926834 TATAGAGGGACAGTTCAAGCTTTATTGT
65 T-TAGAGGGACAACTCAAGCTTTATTGT
3926862 GTATATATAA
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
94 6 0.08
95 74 0.93
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (95 bp):
TATAAACACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGTCCGAGAGTTTAACCAATTGCCT
TAGAGGGACAACTCAAGCTTTATTGTATAG
Found at i:3929398 original size:12 final size:12
Alignment explanation
Indices: 3929378--3929514 Score: 57
Period size: 12 Copynumber: 12.1 Consensus size: 12
3929368 AAATGTTAAT
* *
3929378 ATAACAATAATA
1 ATAATAATAAAA
*
3929390 ATAAAAATAAAA
1 ATAATAATAAAA
*
3929402 A-AATAGATAAAT
1 ATAATA-ATAAAA
*
3929414 A-AAGAA-AAAA
1 ATAATAATAAAA
*
3929424 AT-TTAATAAAA
1 ATAATAATAAAA
*
3929435 AAAATAATAAAA
1 ATAATAATAAAA
3929447 ATGGAA-AA-AATAA
1 AT--AATAATAA-AA
*
3929460 AT-ATAA-AATA
1 ATAATAATAAAA
3929470 A-AATAA-AAAA
1 ATAATAATAAAA
3929480 ATAA-AATAAAA
1 ATAATAATAAAA
3929491 A-AATAA-AAAA
1 ATAATAATAAAA
*
3929501 ATAGTAAATAAAA
1 ATAAT-AATAAAA
3929514 A
1 A
3929515 ACGAAATAAA
Statistics
Matches: 96, Mismatches: 14, Indels: 29
0.69 0.10 0.21
Matches are distributed among these distances:
10 26 0.27
11 24 0.25
12 33 0.34
13 11 0.11
14 2 0.02
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.19
Consensus pattern (12 bp):
ATAATAATAAAA
Found at i:3929421 original size:51 final size:47
Alignment explanation
Indices: 3929366--3929512 Score: 122
Period size: 51 Copynumber: 3.0 Consensus size: 47
3929356 AAGAAGAAAG
3929366 GAAAATGTTAATATAACAATAATAATAAAAATAAAAAAATAGATAAATAAA
1 GAAAAT-TTAATA-AA-AA-AATAATAAAAATAAAAAAATAGATAAATAAA
* * *
3929417 GAAAAAAATTTAATAAAAAAAATAATAAAAATGGAAAAAATAAATATA-AAA
1 G---AAAATTTAAT-AAAAAAATAATAAAAAT-AAAAAAATAGATAAATAAA
* * *
3929468 TAAAA-TAAAAAAATAAAATAA-AAAAATAAAAAAATAG-TAAATAAA
1 GAAAATTTAATAAA-AAAATAATAAAAATAAAAAAATAGATAAATAAA
3929513 AAACGAAATA
Statistics
Matches: 80, Mismatches: 9, Indels: 20
0.73 0.08 0.18
Matches are distributed among these distances:
44 3 0.04
45 11 0.14
46 9 0.11
47 10 0.12
48 4 0.05
51 16 0.20
52 14 0.17
53 7 0.09
54 6 0.08
ACGTcount: A:0.74, C:0.01, G:0.05, T:0.20
Consensus pattern (47 bp):
GAAAATTTAATAAAAAAATAATAAAAATAAAAAAATAGATAAATAAA
Found at i:3929432 original size:33 final size:31
Alignment explanation
Indices: 3929394--3929512 Score: 107
Period size: 32 Copynumber: 3.7 Consensus size: 31
3929384 ATAATAATAA
3929394 AAATAAAAAAATAGATAAATAAAGAAAAAAATT
1 AAATAAAAAAATA-ATAAATAAAGAAAAAAA-T
* * *
3929427 TAATAAAAAAAATAATAAA-AATGGAAAAAAT
1 AAAT-AAAAAAATAATAAATAAAGAAAAAAAT
* * *
3929458 AAATATAAAATAA-AATAAAAAAATAAAATAAAA
1 AAATA-AAAA-AATAATAAATAAAGAAAA-AAAT
*
3929491 AAATAAAAAAATAGTAAATAAA
1 AAATAAAAAAATAATAAATAAA
3929513 AAACGAAATA
Statistics
Matches: 70, Mismatches: 10, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
30 1 0.01
31 16 0.23
32 28 0.40
33 16 0.23
34 9 0.13
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.18
Consensus pattern (31 bp):
AAATAAAAAAATAATAAATAAAGAAAAAAAT
Found at i:3929467 original size:13 final size:13
Alignment explanation
Indices: 3929451--3929497 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
3929441 ATAAAAATGG
3929451 AAAAAATAAATAT
1 AAAAAATAAATAT
*
3929464 AAAATA-AAATA-
1 AAAAAATAAATAT
3929475 AAAAAATAAA-AT
1 AAAAAATAAATAT
3929487 AAAAAAATAAA
1 -AAAAAATAAA
3929498 AAAATAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
11 6 0.21
12 8 0.28
13 15 0.52
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAAAATAAATAT
Found at i:3929514 original size:21 final size:19
Alignment explanation
Indices: 3929383--3929498 Score: 79
Period size: 18 Copynumber: 6.4 Consensus size: 19
3929373 TTAATATAAC
3929383 AATAATAATAAAAATAAAAA
1 AATAA-AATAAAAATAAAAA
* *
3929403 AAT-AGAT--AAATAAAGA
1 AATAAAATAAAAATAAAAA
**
3929419 AA-AAAAT-TTAATAAAAA
1 AATAAAATAAAAATAAAAA
* *
3929436 AA-ATAATAAAAATGGAAAA
1 AATAAAATAAAAAT-AAAAA
3929455 AAT-AAATATAAAATAAAATA
1 AATAAAATA-AAAATAAAA-A
3929475 AA-AAAAT-AAAATAAAAA
1 AATAAAATAAAAATAAAAA
3929492 AATAAAA
1 AATAAAA
3929499 AAATAGTAAA
Statistics
Matches: 76, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
16 13 0.17
17 16 0.21
18 18 0.24
19 14 0.18
20 15 0.20
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (19 bp):
AATAAAATAAAAATAAAAA
Found at i:3938716 original size:20 final size:21
Alignment explanation
Indices: 3938691--3938731 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3938681 GTTGTGGTCG
3938691 TTTCTAGACG-TTGGGGATGA
1 TTTCTAGACGTTTGGGGATGA
*
3938711 TTTCTAGTCGTTTGGGGATGA
1 TTTCTAGACGTTTGGGGATGA
3938732 AATCTCTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.17, C:0.10, G:0.34, T:0.39
Consensus pattern (21 bp):
TTTCTAGACGTTTGGGGATGA
Found at i:3941000 original size:30 final size:30
Alignment explanation
Indices: 3940964--3941031 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
3940954 ATCAACTCAT
* * *
3940964 GAGTGAGAAAAGAACTAATAAGCTCGTCGA
1 GAGTGAGAAAAGAACCAATAAGATCGTCAA
*
3940994 GAGTGAGAAAAGAACCAATAAGATTGTCAA
1 GAGTGAGAAAAGAACCAATAAGATCGTCAA
3941024 GAGTGAGA
1 GAGTGAGA
3941032 GACTTTAGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.46, C:0.10, G:0.28, T:0.16
Consensus pattern (30 bp):
GAGTGAGAAAAGAACCAATAAGATCGTCAA
Found at i:3941836 original size:30 final size:30
Alignment explanation
Indices: 3941780--3941836 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
3941770 AATTTATTTA
*
3941780 GTGACCAAATTATAAATTTGGTAAAGTTTG
1 GTGACCAAAGTATAAATTTGGTAAAGTTTG
*
3941810 GTGATCAAAGTATAAACTTTGG-AAAGT
1 GTGACCAAAGTATAAA-TTTGGTAAAGT
3941837 ATAGGGACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.33
Consensus pattern (30 bp):
GTGACCAAAGTATAAATTTGGTAAAGTTTG
Found at i:3943453 original size:40 final size:40
Alignment explanation
Indices: 3943409--3943517 Score: 191
Period size: 40 Copynumber: 2.7 Consensus size: 40
3943399 GGACTCTAAG
* *
3943409 TGTATATAGTGGGCACGACCTTATGTGTAATACATTTCGA
1 TGTATATGGTGGGCACGACCTTATGTGTAATACACTTCGA
*
3943449 TGTATATGGTGGGCACGACCTTATGTGTAATACACTTCGG
1 TGTATATGGTGGGCACGACCTTATGTGTAATACACTTCGA
3943489 TGTATATGGTGGGCACGACCTTATGTGTA
1 TGTATATGGTGGGCACGACCTTATGTGTA
3943518 GCACTACGGT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.34
Consensus pattern (40 bp):
TGTATATGGTGGGCACGACCTTATGTGTAATACACTTCGA
Found at i:3943685 original size:44 final size:46
Alignment explanation
Indices: 3943622--3943733 Score: 158
Period size: 46 Copynumber: 2.5 Consensus size: 46
3943612 GTAAACATGC
* *
3943622 AAATAAGCTAACGAGCTTATGGGA-T-AATGGCAAGTAT-ATGGGTA
1 AAATAAGCTTACGAGCTTATGGGATTAAATAGCAAGTATAAT-GGTA
* *
3943666 AAATAAGCTTACGAGCTTATGTGATTAAATAGTAAGTATAATGGTA
1 AAATAAGCTTACGAGCTTATGGGATTAAATAGCAAGTATAATGGTA
3943712 AAATAAGCTTACGAGCTTATGG
1 AAATAAGCTTACGAGCTTATGG
3943734 AAAAAATGGT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
44 22 0.37
45 1 0.02
46 35 0.58
47 2 0.03
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (46 bp):
AAATAAGCTTACGAGCTTATGGGATTAAATAGCAAGTATAATGGTA
Found at i:3945710 original size:18 final size:18
Alignment explanation
Indices: 3945687--3945727 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
3945677 ACCTTTATCT
*
3945687 TCCTAGTTGGTACTCATG
1 TCCTAGTTGGAACTCATG
*
3945705 TCCTAGTTGGAACTTATG
1 TCCTAGTTGGAACTCATG
3945723 TCCTA
1 TCCTA
3945728 AAGCTAGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.39
Consensus pattern (18 bp):
TCCTAGTTGGAACTCATG
Found at i:3947801 original size:45 final size:45
Alignment explanation
Indices: 3947745--3947870 Score: 164
Period size: 45 Copynumber: 2.8 Consensus size: 45
3947735 ATATAACATA
* *
3947745 TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTGTAC
1 TTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATAC
* * * *
3947790 TTTTCTATTGATAATGTACCCATATACATTTCAACTGTAGTATAT
1 TTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATAC
* *
3947835 TTTTCTGTTGATAAT-CTACCTATATACATGTCAACT
1 TTTTCTGTTGATAATGC-ACCCATATACATTTCAACT
3947871 CCAGATGCTT
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
45 70 1.00
ACGTcount: A:0.29, C:0.18, G:0.10, T:0.43
Consensus pattern (45 bp):
TTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATAC
Found at i:3948259 original size:45 final size:45
Alignment explanation
Indices: 3948081--3948298 Score: 233
Period size: 45 Copynumber: 4.8 Consensus size: 45
3948071 CACAAACTCC
* * * * *
3948081 AGCATGCTCTTCTGTTGATAATGCACCCATATGCATTTCAAATCT
1 AGCATACTTTTCTGTTGATAATGCACCCATATACATTTCAACTAT
* * * *
3948126 AGCATATTTTTCTGTTGATAATACACCCATATGCATTTCAACTCT
1 AGCATACTTTTCTGTTGATAATGCACCCATATACATTTCAACTAT
* *
3948171 AGCATACTTTTCTGTTGATAATGTACCCATATACATTTCAACTAA
1 AGCATACTTTTCTGTTGATAATGCACCCATATACATTTCAACTAT
* *
3948216 AGTATGA-TTTTCTGTTGATAATGTACCCATATACATTTCAACTAT
1 AGCAT-ACTTTTCTGTTGATAATGCACCCATATACATTTCAACTAT
* * *** *
3948261 GGCAT-CCTTTCATGCCAATAATGCACCCATATGCATTT
1 AGCATACTTTTC-TGTTGATAATGCACCCATATACATTT
3948299 GTATTTTCAT
Statistics
Matches: 149, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
44 4 0.03
45 144 0.97
46 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (45 bp):
AGCATACTTTTCTGTTGATAATGCACCCATATACATTTCAACTAT
Found at i:3948512 original size:22 final size:20
Alignment explanation
Indices: 3948471--3948525 Score: 83
Period size: 22 Copynumber: 2.6 Consensus size: 20
3948461 TGACCTTTCA
3948471 GTATCGATACCCCTACTATG
1 GTATCGATACCCCTACTATG
*
3948491 GTATCGATACTACCCTATTATG
1 GTATCGATAC--CCCTACTATG
3948513 GTATCGATACCCC
1 GTATCGATACCCC
3948526 ATTTCAGTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 13 0.41
22 19 0.59
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (20 bp):
GTATCGATACCCCTACTATG
Found at i:3948681 original size:97 final size:94
Alignment explanation
Indices: 3948471--3948684 Score: 268
Period size: 97 Copynumber: 2.2 Consensus size: 94
3948461 TGACCTTTCA
* *
3948471 GTATCGATACCCCTACTATGGTATCGATACTACCCTATTATGGTATCGATACCCCATTTCAGTAT
1 GTATCGATACCCCTACCATGGTATCGATACTA-CCTATTATGGTATCGATACCCCACTTCAGTAT
* * * *
3948536 TGATGCCAAAATTAGCTTTGATGTAGCCTG
65 CGATACCAAAATTAGATTCGATGTAGCCTG
* * *
3948566 GTATCGATACCCCCACCATGGTATCGATACTA-CTATGCTATGGTATCGATACCCCCCGCTTCTG
1 GTATCGATACCCCTACCATGGTATCGATACTACCTAT--TATGGTATCGATA--CCCCACTTCAG
**
3948630 TATCGATACCAAAATTAGATTCGATGTTTCCTG
62 TATCGATACCAAAATTAGATTCGATGTAGCCTG
*
3948663 GTATCGATACCCTTACCATGGT
1 GTATCGATACCCCTACCATGGT
3948685 CGATACCACA
Statistics
Matches: 102, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
93 4 0.04
95 43 0.42
97 55 0.54
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (94 bp):
GTATCGATACCCCTACCATGGTATCGATACTACCTATTATGGTATCGATACCCCACTTCAGTATC
GATACCAAAATTAGATTCGATGTAGCCTG
Found at i:3948688 original size:95 final size:95
Alignment explanation
Indices: 3948471--3948711 Score: 260
Period size: 95 Copynumber: 2.5 Consensus size: 95
3948461 TGACCTTTCA
* *
3948471 GTATCGATACCCCTACTATGGTATCGATACTACCCTAT--TATGGTATCGATA-CCCCATTTCAG
1 GTATCGATACCCCTACCATGG-ATCGATACTA--CTATGCTATGGTATCGATACCCCCACTTCAG
* * * *
3948533 TATTGATGCCAAAATTAGCTTTGATGTAGCCTG
63 TATCGATACCAAAATTAGATTCGATGTAGCCTG
* * *
3948566 GTATCGATACCCCCACCATGGTATCGATACTACTATGCTATGGTATCGATACCCCCCGCTTCTGT
1 GTATCGATACCCCTACCATGG-ATCGATACTACTATGCTATGGTATCGATA-CCCCCACTTCAGT
**
3948631 ATCGATACCAAAATTAGATTCGATGTTTCCTG
64 ATCGATACCAAAATTAGATTCGATGTAGCCTG
* * *
3948663 GTATCGATACCCTTACCATGG-TCGATACCAC-ATCGCT-TGGTACCGATAC
1 GTATCGATACCCCTACCATGGATCGATACTACTAT-GCTATGGTATCGATAC
3948712 TGATTGAATA
Statistics
Matches: 126, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
93 5 0.04
94 12 0.10
95 55 0.44
97 54 0.43
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (95 bp):
GTATCGATACCCCTACCATGGATCGATACTACTATGCTATGGTATCGATACCCCCACTTCAGTAT
CGATACCAAAATTAGATTCGATGTAGCCTG
Found at i:3949226 original size:170 final size:170
Alignment explanation
Indices: 3948944--3949283 Score: 662
Period size: 170 Copynumber: 2.0 Consensus size: 170
3948934 CTAATATTCC
3948944 TCAAGAGCATTTGATTCTAAGAATCTCACCACAATTTATAACTTGTTATTTCACTCAACCAATGA
1 TCAAGAGCATTTGATTCTAAGAATCTCACCACAATTTATAACTTGTTATTTCACTCAACCAATGA
*
3949009 TTCAAAATTTTCATTTACCTTGTTGACAAGTCAATTTTACCAACAAACATTAATTAACCTTCATA
66 TTCAAAATTTTCATTTACCTTGTTGACAAGTCAATTTTACCAACAAACATTAATAAACCTTCATA
3949074 TATTAGCATATCATTATAAAACCCATTTTCTTTAATCTCT
131 TATTAGCATATCATTATAAAACCCATTTTCTTTAATCTCT
*
3949114 TCAAGAGCATTTGATTCTAAGAATCTCACCACAATTTCTAACTTGTTATTTCACTCAACCAATGA
1 TCAAGAGCATTTGATTCTAAGAATCTCACCACAATTTATAACTTGTTATTTCACTCAACCAATGA
3949179 TTCAAAATTTTCATTTACCTTGTTGACAAGTCAATTTTACCAACAAACATTAATAAACCTTCATA
66 TTCAAAATTTTCATTTACCTTGTTGACAAGTCAATTTTACCAACAAACATTAATAAACCTTCATA
3949244 TATTAGCATATCATTATAAAACCCATTTTCTTTAATCTCT
131 TATTAGCATATCATTATAAAACCCATTTTCTTTAATCTCT
3949284 AATATCTAAT
Statistics
Matches: 168, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
170 168 1.00
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (170 bp):
TCAAGAGCATTTGATTCTAAGAATCTCACCACAATTTATAACTTGTTATTTCACTCAACCAATGA
TTCAAAATTTTCATTTACCTTGTTGACAAGTCAATTTTACCAACAAACATTAATAAACCTTCATA
TATTAGCATATCATTATAAAACCCATTTTCTTTAATCTCT
Found at i:3968627 original size:45 final size:45
Alignment explanation
Indices: 3968577--3968840 Score: 348
Period size: 45 Copynumber: 5.9 Consensus size: 45
3968567 AATATAACAT
** * *
3968577 CTTTTCTGTTGATAATGCCCCCATATGCATTTCAACTATAGTGTA
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAACTATAGTATA
* * *
3968622 TTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAATATA
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAACTATAGTATA
** * *
3968667 CTTTTCTGTTGATAATGTACCCATATACATTTCAACTCCAGCATG
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAACTATAGTATA
* * * * *
3968712 CTCTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGCATA
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAACTATAGTATA
* * *
3968757 CTTTTCTGTTGATAATATACCCATATACATTTCAACTAAAGTATG
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAACTATAGTATA
*
3968802 CTTTTCTGTTGATAATGTACCCGTATACATTTCAACTAT
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAACTAT
3968841 GGCATCCTTT
Statistics
Matches: 189, Mismatches: 30, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 189 1.00
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (45 bp):
CTTTTCTGTTGATAATGTACCCATATACATTTCAACTATAGTATA
Found at i:3968765 original size:135 final size:134
Alignment explanation
Indices: 3968574--3968878 Score: 423
Period size: 135 Copynumber: 2.3 Consensus size: 134
3968564 TAAAATATAA
* * ** * *
3968574 CATCTTTTCTGTTGATAATGCCCCCATATGCATTTCAACTATAGTGTATTTTTCTGTTGATAATG
1 CATCCTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTGTTGATAATA
3968639 TACCCATATACATTTCAACCATAA-TATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
66 TACCCATATACATTTCAACCA-AAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
*
3968703 TCCAG
130 TACAG
* *
3968708 CATGCTCTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGCATACTTTTCTGTTGATAAT
1 CATCCT-TTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTGTTGATAAT
* * *
3968773 ATACCCATATACATTTCAACTAAAGTATGCTTTTCTGTTGATAATGTACCCGTATACATTTCAAC
65 ATACCCATATACATTTCAACCAAAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC
**
3968838 TATGG
130 TACAG
***
3968843 CATCCTTTCATGCCAATAATGCACCCATATGCATTT
1 CATCCTTTC-TGTTGATAATGCACCCATATGCATTT
3968879 GTATTTTCAT
Statistics
Matches: 150, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
134 9 0.06
135 141 0.94
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.39
Consensus pattern (134 bp):
CATCCTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTCTGTTGATAATA
TACCCATATACATTTCAACCAAAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAACT
ACAG
Found at i:3969311 original size:19 final size:20
Alignment explanation
Indices: 3969287--3969340 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 20
3969277 TGACCCTTCA
3969287 GTATCGATACCCCTACTAT-
1 GTATCGATACCCCTACTATG
* *
3969306 GTATCGATACTATCCTATTATG
1 GTATCGATAC--CCCTACTATG
3969328 GTATCGATACCCC
1 GTATCGATACCCC
3969341 CTTTCAGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 10 0.34
20 2 0.07
21 7 0.24
22 10 0.34
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.33
Consensus pattern (20 bp):
GTATCGATACCCCTACTATG
Found at i:3969446 original size:94 final size:95
Alignment explanation
Indices: 3969306--3969525 Score: 263
Period size: 94 Copynumber: 2.3 Consensus size: 95
3969296 CCCCTACTAT
* *
3969306 GTATCGATACTATCCTAT--TATGGTATCGATACCCCCTTTCAGTATCGATACCAAAATTAGCTT
1 GTATCGATACTA--CTATGCTATGGTACCGATACCCCCTTTCAGTATCGATACCAAAATTAGATT
* *
3969369 CGATGTAGCCTGGTATCAATACCCTCACCGTG
64 CGATGTAGCCTGGTATCAACACCCTCACCATG
* *
3969401 GTTATCGATACTACTATGCTAT-GTACCGATACCCCC-TTCGGTATCGATACCAGAATTAGATTC
1 G-TATCGATACTACTATGCTATGGTACCGATACCCCCTTTCAGTATCGATACCAAAATTAGATTC
** * *
3969464 GATGTTTCCTGGTATCGACACCCTTACCATG
65 GATGTAGCCTGGTATCAACACCCTCACCATG
*
3969495 GTATCGATACCAC-ATCGCT-TGGTACCGATAC
1 GTATCGATACTACTAT-GCTATGGTACCGATAC
3969526 TGATTGAATC
Statistics
Matches: 109, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
92 3 0.03
93 24 0.22
94 54 0.50
95 14 0.13
96 14 0.13
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (95 bp):
GTATCGATACTACTATGCTATGGTACCGATACCCCCTTTCAGTATCGATACCAAAATTAGATTCG
ATGTAGCCTGGTATCAACACCCTCACCATG
Found at i:3973674 original size:2 final size:2
Alignment explanation
Indices: 3973667--3973731 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
3973657 AATAAGTATC
3973667 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3973709 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
3973732 ATAATGATAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3973792 original size:27 final size:25
Alignment explanation
Indices: 3973756--3973817 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
3973746 TAATATACGT
*
3973756 ATATAGATAA-TAGAATGAAACACTAAA
1 ATATATATAATTA-AAT-AAACA-TAAA
* *
3973783 ATATATATAATTACATATACATAAA
1 ATATATATAATTAAATAAACATAAA
3973808 ATATATATAA
1 ATATATATAA
3973818 AATATAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
25 14 0.45
26 4 0.13
27 11 0.35
28 2 0.06
ACGTcount: A:0.58, C:0.06, G:0.05, T:0.31
Consensus pattern (25 bp):
ATATATATAATTAAATAAACATAAA
Found at i:3973833 original size:25 final size:24
Alignment explanation
Indices: 3973805--3973871 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 24
3973795 ACATATACAT
3973805 AAAATATATATAAAATATAAAAAA
1 AAAATATATATAAAATATAAAAAA
* * *
3973829 GAAAATAGATA-AAGAAAAT-AAATA
1 -AAAATATATATAA-AATATAAAAAA
*
3973853 ATAATATATATAAAATATA
1 AAAATATATATAAAATATA
3973872 TAGATATAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
23 12 0.36
24 8 0.24
25 13 0.39
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.25
Consensus pattern (24 bp):
AAAATATATATAAAATATAAAAAA
Found at i:3973844 original size:13 final size:13
Alignment explanation
Indices: 3973821--3973853 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
3973811 TATATAAAAT
3973821 ATAAA-AAAGAAA
1 ATAAATAAAGAAA
*
3973833 ATAGATAAAGAAA
1 ATAAATAAAGAAA
3973846 ATAAATAA
1 ATAAATAA
3973854 TAATATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (13 bp):
ATAAATAAAGAAA
Found at i:3974553 original size:20 final size:21
Alignment explanation
Indices: 3974519--3974557 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
3974509 AAATACAGCC
3974519 GATCTGAACCACATGCAAGCT
1 GATCTGAACCACATGCAAGCT
3974540 GATCTGAA-CACATGCAAG
1 GATCTGAACCACATGCAAG
3974558 GAAGAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.18
Consensus pattern (21 bp):
GATCTGAACCACATGCAAGCT
Found at i:3976092 original size:111 final size:110
Alignment explanation
Indices: 3975933--3976153 Score: 289
Period size: 111 Copynumber: 2.0 Consensus size: 110
3975923 AAATTGGCTC
* * *** *
3975933 TGAAACTGGGAAATTGTTTGTTGACAGCCAGCCGTCCCTTCGCTGTGAAGTTGAGCTTGTGTTGT
1 TGAAACTGAGAAATTGTTTGTTGACAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGCACTAT
* *
3975998 CTCGAGTCTAATATCCTTCGATGTAAAGTTGAAATTGACTCTGAA
66 CTCGAGTCCAATATACTTCGATGTAAAGTTGAAATTGACTCTGAA
* * * *
3976043 TGAAACTGAAGAAGTTGTTTGTTGACAGTCATCTGCCCCTTCGCTGTGAAGTTGAGCTTGCACTA
1 TGAAACTG-AGAAATTGTTTGTTGACAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGCACTA
* * * *
3976108 TCTTGAGTCCAATATACTTCGCTGTGAAGTTGAAATTGGCTCTGAA
65 TCTCGAGTCCAATATACTTCGATGTAAAGTTGAAATTGACTCTGAA
3976154 ATTGGGAAGC
Statistics
Matches: 94, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
110 8 0.09
111 86 0.91
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (110 bp):
TGAAACTGAGAAATTGTTTGTTGACAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGCACTAT
CTCGAGTCCAATATACTTCGATGTAAAGTTGAAATTGACTCTGAA
Found at i:3977407 original size:6 final size:7
Alignment explanation
Indices: 3977374--3977413 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
3977364 ACCCTAAACA
3977374 TTTTTTC
1 TTTTTTC
*
3977381 TCTTTTTA
1 T-TTTTTC
3977389 TTTTTTCC
1 TTTTTT-C
3977397 TTTTTTC
1 TTTTTTC
3977404 TTTTTTC
1 TTTTTTC
3977411 TTT
1 TTT
3977414 CTTCGACTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 17 0.59
8 12 0.41
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTTC
Found at i:3977413 original size:14 final size:14
Alignment explanation
Indices: 3977373--3977413 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
3977363 CACCCTAAAC
3977373 ATTTTTTCTCTTTTT
1 ATTTTTTCT-TTTTT
3977388 ATTTTTTCCTTTTTT
1 ATTTTTT-CTTTTTT
*
3977403 CTTTTTTCTTT
1 ATTTTTTCTTT
3977414 CTTCGACTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 18 0.75
16 2 0.08
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (14 bp):
ATTTTTTCTTTTTT
Found at i:3992314 original size:21 final size:23
Alignment explanation
Indices: 3992290--3992340 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
3992280 AGAGAATCGA
3992290 TCCCCCCTTG-A-GGGAACCGAT
1 TCCCCCCTTGAAGGGGAACCGAT
* *
3992311 TCCCCCTTTGAAGGGGAACTGAT
1 TCCCCCCTTGAAGGGGAACCGAT
3992334 TCCCCCC
1 TCCCCCC
3992341 ACAGGGGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 9 0.36
22 1 0.04
23 15 0.60
ACGTcount: A:0.18, C:0.39, G:0.22, T:0.22
Consensus pattern (23 bp):
TCCCCCCTTGAAGGGGAACCGAT
Found at i:3992771 original size:23 final size:25
Alignment explanation
Indices: 3992727--3992773 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
3992717 AGAATTTTCC
*
3992727 AAAAATTTTAAATTTTCGAAATTAA
1 AAAAATGTTAAATTTTCGAAATTAA
3992752 AAAAATGTT-AATTTTC-AAATTA
1 AAAAATGTTAAATTTTCGAAATTA
3992774 TCGTGTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
24 7 0.33
25 8 0.38
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (25 bp):
AAAAATGTTAAATTTTCGAAATTAA
Found at i:4002409 original size:13 final size:13
Alignment explanation
Indices: 4002391--4002460 Score: 104
Period size: 13 Copynumber: 5.4 Consensus size: 13
4002381 ACCGGTCATA
*
4002391 ACCCGACCCGTTT
1 ACCCGACCCGTTG
*
4002404 ACCCGACCTGTTG
1 ACCCGACCCGTTG
*
4002417 ACCCGACCCGTTT
1 ACCCGACCCGTTG
*
4002430 ACCCGACCTGTTG
1 ACCCGACCCGTTG
4002443 ACCCGACCCGTTG
1 ACCCGACCCGTTG
4002456 ACCCG
1 ACCCG
4002461 TTGACCGTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.16, C:0.44, G:0.20, T:0.20
Consensus pattern (13 bp):
ACCCGACCCGTTG
Found at i:4002420 original size:26 final size:26
Alignment explanation
Indices: 4002391--4002460 Score: 131
Period size: 26 Copynumber: 2.7 Consensus size: 26
4002381 ACCGGTCATA
4002391 ACCCGACCCGTTTACCCGACCTGTTG
1 ACCCGACCCGTTTACCCGACCTGTTG
4002417 ACCCGACCCGTTTACCCGACCTGTTG
1 ACCCGACCCGTTTACCCGACCTGTTG
*
4002443 ACCCGACCCGTTGACCCG
1 ACCCGACCCGTTTACCCG
4002461 TTGACCGTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.16, C:0.44, G:0.20, T:0.20
Consensus pattern (26 bp):
ACCCGACCCGTTTACCCGACCTGTTG
Found at i:4003921 original size:26 final size:26
Alignment explanation
Indices: 4003892--4003944 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
4003882 TAACCCAAGA
*
4003892 ATATCATCAAGCTCAT-AAATGATTGG
1 ATATCATCAAGCTC-TGAAATGAATGG
* *
4003918 ATATCCTCGAGCTCTGAAATGAATGG
1 ATATCATCAAGCTCTGAAATGAATGG
4003944 A
1 A
4003945 ATAAAACTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 1 0.04
26 22 0.96
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (26 bp):
ATATCATCAAGCTCTGAAATGAATGG
Found at i:4005036 original size:24 final size:24
Alignment explanation
Indices: 4004918--4005033 Score: 146
Period size: 24 Copynumber: 4.8 Consensus size: 24
4004908 TTCGGTTTGA
4004918 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
*
4004942 ATTCTGATCTGATA-TCTGACATAG
1 ATTCTGATCTGATACT-TGACATGG
* * *
4004966 ATTTTGATCTGATACTTGACTTTG
1 ATTCTGATCTGATACTTGACATGG
*
4004990 ATTCTGATCTGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
*
4005014 AGTT-TGATATGATACTTGAC
1 A-TTCTGATCTGATACTTGAC
4005034 CTGATTTATG
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
23 1 0.01
24 77 0.95
25 3 0.04
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.41
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:4007175 original size:13 final size:13
Alignment explanation
Indices: 4007157--4007181 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4007147 TCATAACCTG
4007157 ACCCGACCCGTTT
1 ACCCGACCCGTTT
4007170 ACCCGACCCGTT
1 ACCCGACCCGTT
4007182 GACCGTTGAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.48, G:0.16, T:0.20
Consensus pattern (13 bp):
ACCCGACCCGTTT
Found at i:4009758 original size:24 final size:24
Alignment explanation
Indices: 4009640--4009755 Score: 137
Period size: 24 Copynumber: 4.8 Consensus size: 24
4009630 TTCGATTTGA
*
4009640 ATTCTAATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
*
4009664 ATTCTGATCTGATA-TCTGACATAG
1 ATTCTGATCTGATACT-TGACATGG
* *
4009688 ATTCTGATCTGATACTTGACTTTG
1 ATTCTGATCTGATACTTGACATGG
* *
4009712 ATTCTGATCTGATAATTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
*
4009736 AGTT-TGATATGATACTTGAC
1 A-TTCTGATCTGATACTTGAC
4009756 CTGATTTATG
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
23 1 0.01
24 76 0.95
25 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.40
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:4012169 original size:24 final size:24
Alignment explanation
Indices: 4012139--4012254 Score: 146
Period size: 24 Copynumber: 4.8 Consensus size: 24
4012129 TTCGATTTGA
4012139 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
**
4012163 ATTCTGATCTGATA-TCTGACATAT
1 ATTCTGATCTGATACT-TGACATGG
*
4012187 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
* *
4012211 ATTCTGATCTGATACTCGACCTGG
1 ATTCTGATCTGATACTTGACATGG
*
4012235 AGTT-TGATATGATACTTGAC
1 A-TTCTGATCTGATACTTGAC
4012255 CTGATTTATG
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
23 1 0.01
24 76 0.95
25 3 0.04
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:4014408 original size:31 final size:31
Alignment explanation
Indices: 4014373--4014437 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
4014363 ACCGGTCATA
* *
4014373 ACCCGACCCGACCCGTTTACCTGACCCATTG
1 ACCCGACCCGACCCGTTGACCCGACCCATTG
* *
4014404 ACCCGACCCGACCTGTTGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTGACCCGACCCATTG
4014435 ACC
1 ACC
4014438 GTTGACTCGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.46, G:0.18, T:0.17
Consensus pattern (31 bp):
ACCCGACCCGACCCGTTGACCCGACCCATTG
Found at i:4014416 original size:18 final size:18
Alignment explanation
Indices: 4014395--4014431 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4014385 CCGTTTACCT
4014395 GACCCATTGACCCGACCC
1 GACCCATTGACCCGACCC
**
4014413 GACCTGTTGACCCGACCC
1 GACCCATTGACCCGACCC
4014431 G
1 G
4014432 TTGACCGTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.46, G:0.22, T:0.14
Consensus pattern (18 bp):
GACCCATTGACCCGACCC
Found at i:4014424 original size:13 final size:13
Alignment explanation
Indices: 4014408--4014437 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4014398 CCATTGACCC
*
4014408 GACCCGACCTGTT
1 GACCCGACCCGTT
4014421 GACCCGACCCGTT
1 GACCCGACCCGTT
4014434 GACC
1 GACC
4014438 GTTGACTCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.43, G:0.23, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:4016931 original size:24 final size:24
Alignment explanation
Indices: 4016904--4017019 Score: 155
Period size: 24 Copynumber: 4.8 Consensus size: 24
4016894 TTCGATTTGA
4016904 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
* *
4016928 ATTCTGATCTAATA-TCTGACATAG
1 ATTCTGATCTGATACT-TGACATGG
*
4016952 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
*
4016976 ATTCTGATCTGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
*
4017000 AGTT-TGATATGATACTTGAC
1 A-TTCTGATCTGATACTTGAC
4017020 CTGATTTATG
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
23 1 0.01
24 78 0.95
25 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:4021761 original size:18 final size:17
Alignment explanation
Indices: 4021735--4021772 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
4021725 AACAAAATGA
4021735 AAAGAAAGAAAAAAAAT
1 AAAGAAAGAAAAAAAAT
*
4021752 AAAGACAAGAAACAAAAT
1 AAAGA-AAGAAAAAAAAT
4021770 AAA
1 AAA
4021773 TAAATAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.79, C:0.05, G:0.11, T:0.05
Consensus pattern (17 bp):
AAAGAAAGAAAAAAAAT
Found at i:4022700 original size:20 final size:21
Alignment explanation
Indices: 4022665--4022704 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
4022655 AAAATACAGT
4022665 CGATCTGAACCACATGCAAGC
1 CGATCTGAACCACATGCAAGC
4022686 CGATCTGAA-CACATGCAAG
1 CGATCTGAACCACATGCAAG
4022705 GAAGAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.35, C:0.30, G:0.20, T:0.15
Consensus pattern (21 bp):
CGATCTGAACCACATGCAAGC
Found at i:4023251 original size:2 final size:2
Alignment explanation
Indices: 4023244--4023300 Score: 52
Period size: 2 Copynumber: 30.0 Consensus size: 2
4023234 AAATGAACAC
*
4023244 AT AT AT AT AT -T AT GAT TT AT A- AT AT CAT AT A- AT A- AT -T AT
1 AT AT AT AT AT AT AT -AT AT AT AT AT AT -AT AT AT AT AT AT AT AT
4023283 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
4023301 TTGGGCGGAC
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
1 5 0.11
2 37 0.80
3 4 0.09
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4025344 original size:31 final size:31
Alignment explanation
Indices: 4025273--4025344 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
4025263 AAAATATAAT
*
4025273 ATATGATTACTTTCATTCTTATTCAATTAAG
1 ATATGATCACTTTCATTCTTATTCAATTAAG
* * * *
4025304 ATATTATCACTTTCGTTTTTATTTAATTAAG
1 ATATGATCACTTTCATTCTTATTCAATTAAG
*
4025335 ATGTGATCAC
1 ATATGATCAC
4025345 CACGGGGTAC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.49
Consensus pattern (31 bp):
ATATGATCACTTTCATTCTTATTCAATTAAG
Found at i:4026882 original size:18 final size:19
Alignment explanation
Indices: 4026841--4026876 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
4026831 TTAGAACACC
4026841 TAAAATCATTTAATTTTAA
1 TAAAATCATTTAATTTTAA
*
4026860 TAAAA-CATTTTATTTTA
1 TAAAATCATTTAATTTTA
4026877 TCAAAAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (19 bp):
TAAAATCATTTAATTTTAA
Found at i:4029002 original size:9 final size:10
Alignment explanation
Indices: 4028973--4029005 Score: 50
Period size: 9 Copynumber: 3.3 Consensus size: 10
4028963 AACATTTAAA
4028973 AAATTAGTTTT
1 AAATTA-TTTT
4028984 AAATTATTTT
1 AAATTATTTT
4028994 AAA-TATTTT
1 AAATTATTTT
4029003 AAA
1 AAA
4029006 CAATTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.41
10 7 0.32
11 6 0.27
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (10 bp):
AAATTATTTT
Found at i:4030977 original size:16 final size:16
Alignment explanation
Indices: 4030956--4030987 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4030946 ATAATAATAT
4030956 TTTAAAGATTTTTAAA
1 TTTAAAGATTTTTAAA
*
4030972 TTTAAATATTTTTAAA
1 TTTAAAGATTTTTAAA
4030988 AAAAAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAAAGATTTTTAAA
Found at i:4035465 original size:17 final size:18
Alignment explanation
Indices: 4035447--4035479 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
4035437 TAATTAAATA
4035447 AAATA-TTAAA-AAATTT
1 AAATACTTAAATAAATTT
4035463 AAATACTTAAATAAATT
1 AAATACTTAAATAAATT
4035480 ACAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
AAATACTTAAATAAATTT
Found at i:4039659 original size:21 final size:21
Alignment explanation
Indices: 4039632--4039680 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
4039622 ATCCGAGTTA
*
4039632 CCCGCGACGACCGCAATAGTG
1 CCCGCGACGACCGCAATAGCG
* * *
4039653 TCCGCGACGGCCGTAATAGCG
1 CCCGCGACGACCGCAATAGCG
4039674 CCCGCGA
1 CCCGCGA
4039681 TGGCCACAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.20, C:0.39, G:0.31, T:0.10
Consensus pattern (21 bp):
CCCGCGACGACCGCAATAGCG
Found at i:4052114 original size:7 final size:7
Alignment explanation
Indices: 4052081--4052152 Score: 72
Period size: 7 Copynumber: 10.3 Consensus size: 7
4052071 GTGCATAACT
4052081 TAAACCC
1 TAAACCC
* *
4052088 TAAATCA
1 TAAACCC
*
4052095 TAAACTC
1 TAAACCC
4052102 TAAACCC
1 TAAACCC
*
4052109 TAAACCT
1 TAAACCC
*
4052116 TAAACCT
1 TAAACCC
**
4052123 TAAATAC
1 TAAACCC
*
4052130 TAAATCC
1 TAAACCC
4052137 TAAACCC
1 TAAACCC
4052144 TAAACCC
1 TAAACCC
4052151 TA
1 TA
4052153 TCACATAATT
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 53 1.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.24
Consensus pattern (7 bp):
TAAACCC
Found at i:4052303 original size:20 final size:20
Alignment explanation
Indices: 4052278--4052326 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
4052268 ATATAACATT
4052278 TTTTCGAGTAGCTCACGAGC
1 TTTTCGAGTAGCTCACGAGC
4052298 TTTTCGAGTAGCTCACGAGC
1 TTTTCGAGTAGCTCACGAGC
4052318 TTTTCGAGT
1 TTTTCGAGT
4052327 CGAATATCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.35
Consensus pattern (20 bp):
TTTTCGAGTAGCTCACGAGC
Found at i:4052799 original size:2 final size:2
Alignment explanation
Indices: 4052792--4052819 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4052782 TTGAATCTTA
4052792 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4052820 TAATAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4057326 original size:24 final size:25
Alignment explanation
Indices: 4057287--4057343 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
4057277 GCAAGAAAAA
*
4057287 GAAGATTTTAGCTAG-AAATGAAGT
1 GAAGATTTAAGCTAGAAAATGAAGT
*
4057311 GAAGATTTAAGTTAGAAAATGAAGT
1 GAAGATTTAAGCTAGAAAATGAAGT
4057336 GAAGATTT
1 GAAGATTT
4057344 GCAAGACATT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 13 0.43
25 17 0.57
ACGTcount: A:0.44, C:0.02, G:0.25, T:0.30
Consensus pattern (25 bp):
GAAGATTTAAGCTAGAAAATGAAGT
Found at i:4057617 original size:39 final size:39
Alignment explanation
Indices: 4057570--4057705 Score: 158
Period size: 39 Copynumber: 3.6 Consensus size: 39
4057560 AAACTTTTCA
* *
4057570 AAAG-AGTTCATAATGAGAAGAACTTATTCAAAAAGAAG
1 AAAGAAGTTCATAATGAGAAGAACTCAGTCAAAAAGAAG
* *
4057608 AAAGAAGTTCATAATGAGAAGAACTCAGCCGAAAAGAAG
1 AAAGAAGTTCATAATGAGAAGAACTCAGTCAAAAAGAAG
* * *
4057647 --AGAAGCTCATAATAAGAAGAACTCAGTC--GAA-AAG
1 AAAGAAGTTCATAATGAGAAGAACTCAGTCAAAAAGAAG
*
4057681 AAAGAAGTTCGTAATGAGAAGAACT
1 AAAGAAGTTCATAATGAGAAGAACT
4057706 TGTTCAATCT
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
34 3 0.04
35 2 0.02
36 20 0.24
37 25 0.30
38 4 0.05
39 30 0.36
ACGTcount: A:0.51, C:0.11, G:0.21, T:0.17
Consensus pattern (39 bp):
AAAGAAGTTCATAATGAGAAGAACTCAGTCAAAAAGAAG
Found at i:4057627 original size:21 final size:20
Alignment explanation
Indices: 4057570--4057630 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 20
4057560 AAACTTTTCA
4057570 AAAGAGTTCATAATGAGAAG
1 AAAGAGTTCATAATGAGAAG
** *
4057590 AACTTA-TTCA-AA-AAGAAG
1 AA-AGAGTTCATAATGAGAAG
4057608 AAAGAAGTTCATAATGAGAAG
1 AAAG-AGTTCATAATGAGAAG
4057629 AA
1 AA
4057631 CTCAGCCGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 9
0.67 0.13 0.20
Matches are distributed among these distances:
18 8 0.27
19 6 0.20
20 8 0.27
21 8 0.27
ACGTcount: A:0.54, C:0.07, G:0.20, T:0.20
Consensus pattern (20 bp):
AAAGAGTTCATAATGAGAAG
Found at i:4057685 original size:19 final size:19
Alignment explanation
Indices: 4057626--4057686 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
4057616 TCATAATGAG
*
4057626 AAGAACTCAGCCGAAAAGA
1 AAGAACTCAGTCGAAAAGA
4057645 AGAGAAGCTCA-T--AATAAG-
1 A-AGAA-CTCAGTCGAA-AAGA
4057663 AAGAACTCAGTCGAAAAGA
1 AAGAACTCAGTCGAAAAGA
4057682 AAGAA
1 AAGAA
4057687 GTTCGTAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 14
0.69 0.02 0.29
Matches are distributed among these distances:
16 4 0.12
17 5 0.15
18 6 0.18
19 11 0.32
20 4 0.12
21 4 0.12
ACGTcount: A:0.54, C:0.15, G:0.21, T:0.10
Consensus pattern (19 bp):
AAGAACTCAGTCGAAAAGA
Found at i:4058228 original size:48 final size:48
Alignment explanation
Indices: 4058157--4058252 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
4058147 TATCCATCAG
4058157 TCAAGCCCACATGAAGACCTATTAGCAATAAGGGTTCCAGTTTTTAAT
1 TCAAGCCCACATGAAGACCTATTAGCAATAAGGGTTCCAGTTTTTAAT
4058205 TCAAGCCCACATGAAGACCTATTAGCAATAAGGGTTCCAGTTTTTAAT
1 TCAAGCCCACATGAAGACCTATTAGCAATAAGGGTTCCAGTTTTTAAT
4058253 CCTAGTCACT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (48 bp):
TCAAGCCCACATGAAGACCTATTAGCAATAAGGGTTCCAGTTTTTAAT
Found at i:4059365 original size:2 final size:2
Alignment explanation
Indices: 4059358--4059410 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
4059348 TTGCATTATT
4059358 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4059400 TA TA TA TA TA T
1 TA TA TA TA TA T
4059411 TACATGTACA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4059958 original size:138 final size:139
Alignment explanation
Indices: 4059745--4060236 Score: 519
Period size: 138 Copynumber: 3.5 Consensus size: 139
4059735 AAGTTTTATT
* * * * *
4059745 TTAATTATTTGATTCAATAAATTCTTAAAATTCG-TTAGGTTTCAATATTAGAGCCTTCACTTTA
1 TTAATTATTCGATTCAATAAATTGTTAAAATT-GATTAGGTTTTAATATTAGAGACTTCACCTTA
* ** * * *
4059809 GTTCTAATTTCACCTTAACCCTTTAATTTAGGTGCATTTTTAATTTGGTCCTCTCCTTTTGC-CT
65 GTTTTAATTTCACCTTAGTCCTTTAATTTAGGTGAATTTTTAATTTGGTCATCTCCTTTTACTC-
4059873 G-GTGTTCCAAG
129 GAG-GTTCCAAG
* * *
4059884 TTAATTATTCGATTCAATAATTTGTTAAAATT-ATTAAGTTTTAATATTAGAGTCTTCACCTTAG
1 TTAATTATTCGATTCAATAAATTGTTAAAATTGATTAGGTTTTAATATTAGAGACTTCACCTTAG
* ** ** *
4059948 TTTTAGTTTCACCTTAGTAATTTAATTTAGGTGAATTTGAAATTTGGTCATCGCCTTTTACTCGA
66 TTTTAATTTCACCTTAGTCCTTTAATTTAGGTGAATTTTTAATTTGGTCATCTCCTTTTACTCGA
*
4060013 GGTTCCAAT
131 GGTTCCAAG
* * * *
4060022 TTAATTATTAGATTCAATAACTTGTTAAAATTGATTAGGTTTTAGTATTAGA-ACATTTACCTTA
1 TTAATTATTCGATTCAATAAATTGTTAAAATTGATTAGGTTTTAATATTAGAGAC-TTCACCTTA
* ** * * * *
4060086 ATTTTAATTTCATATTAGTCCTTCAATTTAGGTGAATTTTTTTAATTTAGTCGT-TGCCTTTTTT
65 GTTTTAATTTCACCTTAGTCCTTTAATTTAGGTGAA--TTTTTAATTTGGTCATCT-CC-TTTTA
4060150 CTCGAGGTTCCAAG
126 CTCGAGGTTCCAAG
* * * * * *
4060164 TTAATTATTCGTTTCGATAAGTTGTTAAAATTGATTAGGTTTTAATATTAGATACTACACTTTAG
1 TTAATTATTCGATTCAATAAATTGTTAAAATTGATTAGGTTTTAATATTAGAGACTTCACCTTA-
4060229 GTTTTAAT
65 GTTTTAAT
4060237 GCATTTTAAT
Statistics
Matches: 293, Mismatches: 49, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
138 115 0.39
139 85 0.29
141 14 0.05
142 70 0.24
143 9 0.03
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.47
Consensus pattern (139 bp):
TTAATTATTCGATTCAATAAATTGTTAAAATTGATTAGGTTTTAATATTAGAGACTTCACCTTAG
TTTTAATTTCACCTTAGTCCTTTAATTTAGGTGAATTTTTAATTTGGTCATCTCCTTTTACTCGA
GGTTCCAAG
Found at i:4060610 original size:3 final size:3
Alignment explanation
Indices: 4060602--4060650 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
4060592 CTCATGTATA
4060602 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4060649 AA
1 AA
4060651 AAGTAATGTA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4078403 original size:17 final size:17
Alignment explanation
Indices: 4078378--4078413 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
4078368 ATCGTGCCAC
4078378 ATCTCTCAAATGGTTTA
1 ATCTCTCAAATGGTTTA
*
4078395 ATCTTTCAAATGGTTTA
1 ATCTCTCAAATGGTTTA
4078412 AT
1 AT
4078414 GATATTCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (17 bp):
ATCTCTCAAATGGTTTA
Found at i:4078964 original size:36 final size:36
Alignment explanation
Indices: 4078914--4078984 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
4078904 ACTCTCAATT
* * * *
4078914 ATTTGACATTGAATGTTCATATCCTTATTGTTCATC
1 ATTTGACATCGAATGCTCATACCCTTATTATTCATC
*
4078950 ATTTGATATCGAATGCTCATACCCTTATTATTCAT
1 ATTTGACATCGAATGCTCATACCCTTATTATTCAT
4078985 GGTGTTTGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.27, C:0.18, G:0.10, T:0.45
Consensus pattern (36 bp):
ATTTGACATCGAATGCTCATACCCTTATTATTCATC
Found at i:4081491 original size:18 final size:19
Alignment explanation
Indices: 4081468--4081532 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
4081458 AGATAATAAA
4081468 AATTTA-AATTTT-TTATAT
1 AATTTATAATTTTATTA-AT
*
4081486 AATTTATACTTTTATTAAT
1 AATTTATAATTTTATTAAT
*
4081505 AATTTAT-TTATTTATTAA-
1 AATTTATAAT-TTTATTAAT
4081523 AATTTTATAA
1 AA-TTTATAA
4081533 ACCTATTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 9 0.23
19 27 0.69
20 3 0.08
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
AATTTATAATTTTATTAAT
Found at i:4081998 original size:3 final size:3
Alignment explanation
Indices: 4081990--4082031 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
4081980 ACTCTTCTCT
*
4081990 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC GTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
4082032 GTATCTTTCC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:4100316 original size:8 final size:8
Alignment explanation
Indices: 4100303--4100343 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
4100293 CTCATTTTCA
4100303 GAGAATTT
1 GAGAATTT
4100311 GAGAATTT
1 GAGAATTT
*
4100319 -AGAGTTT
1 GAGAATTT
*
4100326 GGGAATTT
1 GAGAATTT
4100334 GAGAATTT
1 GAGAATTT
4100342 GA
1 GA
4100344 AAGCTTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:4100678 original size:128 final size:127
Alignment explanation
Indices: 4100426--4100754 Score: 597
Period size: 128 Copynumber: 2.6 Consensus size: 127
4100416 TATTCACATA
* * *
4100426 AAGGCGCGTTCCCGAGG-GTGCCTTCCATTATTTTATCAGAGAATATGTTATCATTGCCCTATTA
1 AAGGCGCGTTCCCGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTA
4100490 TGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTG
66 TGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTG
*
4100552 AAGGCGCGTTCCCAGGGGCGCGCCTACCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
1 AAGGCGCGTTCCC-GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
4100617 ATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTG
65 ATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTG
4100680 AAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
1 AAGGCGCGTTCCC-GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
4100745 ATGTCACTCA
65 ATGTCACTCA
4100755 CCCTGTTATG
Statistics
Matches: 195, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
126 13 0.07
127 3 0.02
128 179 0.92
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.33
Consensus pattern (127 bp):
AAGGCGCGTTCCCGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTA
TGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACTTG
Found at i:4100887 original size:14 final size:14
Alignment explanation
Indices: 4100868--4100897 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4100858 GATAAGTTGA
*
4100868 TTTTAATGTATATG
1 TTTTAATATATATG
4100882 TTTTAATATATATG
1 TTTTAATATATATG
4100896 TT
1 TT
4100898 AATGATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (14 bp):
TTTTAATATATATG
Found at i:4101045 original size:34 final size:34
Alignment explanation
Indices: 4101006--4101112 Score: 133
Period size: 34 Copynumber: 3.1 Consensus size: 34
4100996 TAAGTTGAAA
* *
4101006 TTTAATGTTAAATTTCGAATACTATAATTTATAT
1 TTTAATTTTAAATTTCGAATAATATAATTTATAT
* * * *
4101040 TTTAATTTTAACTTTCAAATAATATTATTTTTAT
1 TTTAATTTTAAATTTCGAATAATATAATTTATAT
* * *
4101074 TTTTATTTTAAATTTCGAATATTATAATTTGTAT
1 TTTAATTTTAAATTTCGAATAATATAATTTATAT
4101108 TTTAA
1 TTTAA
4101113 AAACATTTAT
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 60 1.00
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.56
Consensus pattern (34 bp):
TTTAATTTTAAATTTCGAATAATATAATTTATAT
Found at i:4101663 original size:21 final size:20
Alignment explanation
Indices: 4101636--4101705 Score: 95
Period size: 21 Copynumber: 3.4 Consensus size: 20
4101626 GGTATAAAAC
4101636 CCTGCGGGCTCGGAATGTAA
1 CCTGCGGGCTCGGAATGTAA
*
4101656 CCTGGCGGGCTAGGAATGTAA
1 CCT-GCGGGCTCGGAATGTAA
*
4101677 CCCTGAGGGCTCGGAATGTAA
1 -CCTGCGGGCTCGGAATGTAA
4101698 CCCTGCGG
1 -CCTGCGG
4101706 AGATGGCATA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
20 3 0.07
21 38 0.86
22 3 0.07
ACGTcount: A:0.20, C:0.26, G:0.36, T:0.19
Consensus pattern (20 bp):
CCTGCGGGCTCGGAATGTAA
Found at i:4101735 original size:21 final size:21
Alignment explanation
Indices: 4101709--4101756 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
4101699 CCTGCGGAGA
*
4101709 TGGCATATGAACTGGTGGGCT
1 TGGCATATGAACTGGAGGGCT
*
4101730 TGGCATATGAAGTGGAGGGCT
1 TGGCATATGAACTGGAGGGCT
*
4101751 GGGCAT
1 TGGCAT
4101757 GTACCCCTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.12, G:0.42, T:0.25
Consensus pattern (21 bp):
TGGCATATGAACTGGAGGGCT
Found at i:4103321 original size:17 final size:17
Alignment explanation
Indices: 4103284--4103337 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
4103274 TACATTAAAA
* *
4103284 AAATT-AAAATTAATAT
1 AAATTAAAAATAAATTT
* * *
4103300 AAATTCATAATAACTTT
1 AAATTAAAAATAAATTT
4103317 AAATTAAAAATAAATTT
1 AAATTAAAAATAAATTT
4103334 AAAT
1 AAAT
4103338 ATTAACATTA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 5 0.17
17 25 0.83
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATTAAAAATAAATTT
Found at i:4103502 original size:19 final size:19
Alignment explanation
Indices: 4103478--4103536 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
4103468 TTAATAATTC
*
4103478 TAAATAAATAATAATTATA
1 TAAATAAATAATATTTATA
*
4103497 TAAAT--ATTAT-TTTA-A
1 TAAATAAATAATATTTATA
*
4103512 TAAAAAAATAATATTTATA
1 TAAATAAATAATATTTATA
4103531 TAAATA
1 TAAATA
4103537 TATTAATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
15 5 0.16
16 3 0.10
17 8 0.26
18 4 0.13
19 11 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TAAATAAATAATATTTATA
Found at i:4103522 original size:34 final size:31
Alignment explanation
Indices: 4103478--4103566 Score: 97
Period size: 34 Copynumber: 2.7 Consensus size: 31
4103468 TTAATAATTC
*
4103478 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTATATAAATA-TA--TTAA
*
4103512 TAAAAAAATAATATTTATATAAATATATTAA
1 TAAAAAAATAATAATTATATAAATATATTAA
* * *
4103543 TATAAAATATAATAACTATTTAAA
1 TA-AAAAAATAATAATTATATAAA
4103567 AAAATACTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
31 6 0.12
32 17 0.35
33 2 0.04
34 23 0.48
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (31 bp):
TAAAAAAATAATAATTATATAAATATATTAA
Found at i:4103550 original size:15 final size:15
Alignment explanation
Indices: 4103516--4103553 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
4103506 TTTTAATAAA
*
4103516 AAAATAATATTTATAT
1 AAAAT-ATATTAATAT
4103532 -AAATATATTAATAT
1 AAAATATATTAATAT
4103546 AAAATATA
1 AAAATATA
4103554 ATAACTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAATATATTAATAT
Found at i:4105325 original size:17 final size:17
Alignment explanation
Indices: 4105303--4105342 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
4105293 CCGCTCTTTG
4105303 CCGGTCCGACCTTTCCA
1 CCGGTCCGACCTTTCCA
4105320 CCGGTCCGACCTTTCCA
1 CCGGTCCGACCTTTCCA
4105337 CCGGTC
1 CCGGTC
4105343 TGCGTCAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.10, C:0.47, G:0.20, T:0.23
Consensus pattern (17 bp):
CCGGTCCGACCTTTCCA
Found at i:4108502 original size:67 final size:68
Alignment explanation
Indices: 4108423--4108559 Score: 240
Period size: 67 Copynumber: 2.0 Consensus size: 68
4108413 TCTTTCCTTA
*
4108423 TGGACGAACTTCATGTATCATGTTAATTTTGTGTATACAATGCCG-AAACTAAATACAATGTAGA
1 TGGACGAACTTCATGTATCATGTTAATTTTGTGTATACAATGCCGAAAACTAAATACAATGTACA
4108487 TTT
66 TTT
* *
4108490 TGGACGAACTTCATGTATCATGTTAATTTTGTGTATACAATGCGGAAAACTAAATCCAATGTACA
1 TGGACGAACTTCATGTATCATGTTAATTTTGTGTATACAATGCCGAAAACTAAATACAATGTACA
4108555 TTT
66 TTT
4108558 TG
1 TG
4108560 TCTCTGTCGT
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
67 44 0.67
68 22 0.33
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.36
Consensus pattern (68 bp):
TGGACGAACTTCATGTATCATGTTAATTTTGTGTATACAATGCCGAAAACTAAATACAATGTACA
TTT
Found at i:4114092 original size:18 final size:18
Alignment explanation
Indices: 4114066--4114112 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
4114056 GCTATATAAG
*
4114066 TGTGACTATTCCAAGACT
1 TGTGCCTATTCCAAGACT
4114084 TGTGCCTATTCCAAGACT
1 TGTGCCTATTCCAAGACT
4114102 TGTGCCTATTC
1 TGTGCCTATTC
4114113 TAGATATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (18 bp):
TGTGCCTATTCCAAGACT
Found at i:4114494 original size:90 final size:89
Alignment explanation
Indices: 4114386--4114560 Score: 296
Period size: 90 Copynumber: 2.0 Consensus size: 89
4114376 TCCCAAATAT
* * *
4114386 TTAATTTCAATTAATTAAATATAAATTTAATTAATTTGAAATAATAAAATCCCTAATATGATTAG
1 TTAAATTCAATTAATTAAATATAAATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTAG
4114451 GGTAACTTGGATATAAAAGGATTA
66 GGTAACTTGGATATAAAAGGATTA
*
4114475 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTA
1 TTAAATTC-AATTAATTAAATATAAATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTA
*
4114540 GGGTAACTTGGCTATAAAAGG
65 GGGTAACTTGGATATAAAAGG
4114561 GTGTGTTAGG
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
89 7 0.09
90 73 0.91
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.37
Consensus pattern (89 bp):
TTAAATTCAATTAATTAAATATAAATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTAG
GGTAACTTGGATATAAAAGGATTA
Found at i:4121333 original size:90 final size:90
Alignment explanation
Indices: 4121174--4121351 Score: 302
Period size: 90 Copynumber: 2.0 Consensus size: 90
4121164 TAATCCCGAA
* * * *
4121174 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTGATATGAT
1 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
4121239 TAGGGTAACTTGGATATAAAAGGAT
66 TAGGGTAACTTGGATATAAAAGGAT
*
4121264 TATTAAATTTCAATTAATTAAATATATATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
1 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
*
4121329 TAGGGTAACTTGGCTATAAAAGG
66 TAGGGTAACTTGGATATAAAAGG
4121352 GTATGTTAGG
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 82 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (90 bp):
TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
TAGGGTAACTTGGATATAAAAGGAT
Found at i:4125984 original size:22 final size:22
Alignment explanation
Indices: 4125927--4125985 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
4125917 ACGCGATTCT
4125927 GACTATCGCATTGCGATTTTCC
1 GACTATCGCATTGCGATTTTCC
* * *
4125949 AAAT-TCGCGTTGCGATTTTCC
1 GACTATCGCATTGCGATTTTCC
*
4125970 GACTATCGCAATGCGA
1 GACTATCGCATTGCGA
4125986 ATATGTAAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.32
Consensus pattern (22 bp):
GACTATCGCATTGCGATTTTCC
Found at i:4126046 original size:20 final size:20
Alignment explanation
Indices: 4125970--4126100 Score: 122
Period size: 20 Copynumber: 6.5 Consensus size: 20
4125960 GCGATTTTCC
*
4125970 GACTATCGCAATGCGAATAT
1 GACTATCGCAATGCGATTAT
* *
4125990 GTA-AATCGCAATGCGAATAT
1 G-ACTATCGCAATGCGATTAT
*
4126010 GTA-AATCGCAATGCGATTAT
1 G-ACTATCGCAATGCGATTAT
*
4126030 GACTATCGCAATGCGATTCT
1 GACTATCGCAATGCGATTAT
* * *
4126050 GACAATCGCAACGCGATTCT
1 GACTATCGCAATGCGATTAT
* * *
4126070 GACTGTCGCAACGCGATTCT
1 GACTATCGCAATGCGATTAT
*
4126090 GACTGTCGCAA
1 GACTATCGCAA
4126101 CACTAAATTT
Statistics
Matches: 101, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
19 1 0.01
20 99 0.98
21 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (20 bp):
GACTATCGCAATGCGATTAT
Found at i:4126944 original size:24 final size:24
Alignment explanation
Indices: 4126912--4126965 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
4126902 GTATTCGAAA
4126912 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
4126936 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
4126960 TTTGAT
1 TTTGAT
4126966 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:4127184 original size:14 final size:14
Alignment explanation
Indices: 4127155--4127191 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
4127145 AGAAAAAGAA
4127155 GAAGAAGAAATCCCC
1 GAAGAA-AAATCCCC
*
4127170 GAAGAAAAGTCCCC
1 GAAGAAAAATCCCC
4127184 GAAGAAAA
1 GAAGAAAA
4127192 TGCCACGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.51, C:0.22, G:0.22, T:0.05
Consensus pattern (14 bp):
GAAGAAAAATCCCC
Found at i:4129246 original size:18 final size:18
Alignment explanation
Indices: 4129223--4129257 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4129213 AGAAAAAGGC
4129223 AATCAAAATCGCAATCAA
1 AATCAAAATCGCAATCAA
*
4129241 AATCAAAATCTCAATCA
1 AATCAAAATCGCAATCA
4129258 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.23, G:0.03, T:0.20
Consensus pattern (18 bp):
AATCAAAATCGCAATCAA
Found at i:4129577 original size:140 final size:140
Alignment explanation
Indices: 4129317--4129586 Score: 486
Period size: 140 Copynumber: 1.9 Consensus size: 140
4129307 AAACATTGTA
*
4129317 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTTAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
* * *
4129382 TGATCTTTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCACAATGCGAATTTGACTAT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCACAACGCGAATTTGACTAT
4129447 TATGTGTATT
131 TATGTGTATT
*
4129457 TTATGTGTAAACTTTTAATATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
*
4129522 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCACAACGCGAATTTGACTAT
4129587 CGCAACGCGA
Statistics
Matches: 124, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
140 124 1.00
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (140 bp):
TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCACAACGCGAATTTGACTAT
TATGTGTATT
Found at i:4129582 original size:20 final size:20
Alignment explanation
Indices: 4129557--4129787 Score: 269
Period size: 20 Copynumber: 11.8 Consensus size: 20
4129547 TTACACATTC
*
4129557 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
4129577 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
4129597 ATTTGATTATCGCAACTC-A
1 ATTTGACTATCGCAACGCGA
*
4129616 A----A-AATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
4129631 ATTTGACTATCGCAACACGA
1 ATTTGACTATCGCAACGCGA
* *
4129651 ATATGACTATCGCAATGCGA
1 ATTTGACTATCGCAACGCGA
*
4129671 ATTTGACTATCGCAACGAC-T
1 ATTTGACTATCGCAACG-CGA
*
4129691 ATTTGACTATCGCAAAGCGA
1 ATTTGACTATCGCAACGCGA
* *
4129711 ATTTAACTATCGCAATGCGA
1 ATTTGACTATCGCAACGCGA
*
4129731 ATTTGAGTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * *
4129751 ATTTGATTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGA
4129771 ATTTGACTATCGCAACG
1 ATTTGACTATCGCAACG
4129788 AGAAAATCGC
Statistics
Matches: 179, Mismatches: 24, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
14 9 0.05
15 3 0.02
19 4 0.02
20 162 0.91
21 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.27
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:4129855 original size:20 final size:20
Alignment explanation
Indices: 4129826--4129883 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
4129816 GCAACGCAAA
4129826 TTGACTTTCGCGTTGCGATT
1 TTGACTTTCGCGTTGCGATT
* *
4129846 TTGTCTTTCGCATTGCGATT
1 TTGACTTTCGCGTTGCGATT
* *
4129866 TTGAGTTTAGCGTTGCGA
1 TTGACTTTCGCGTTGCGA
4129884 AAGTGTACCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.12, C:0.17, G:0.26, T:0.45
Consensus pattern (20 bp):
TTGACTTTCGCGTTGCGATT
Found at i:4131554 original size:42 final size:42
Alignment explanation
Indices: 4131447--4131558 Score: 118
Period size: 42 Copynumber: 2.7 Consensus size: 42
4131437 TCTAGAATGT
* * * *
4131447 TGGGAGAGACCTCTTCAACGATGACAGTGGCCTCTTGAACGG
1 TGGGAGAGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGA
* * ** *
4131489 TGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGA
1 TGGGAGAGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGA
*
4131531 TAGGG-GATGCCTCTTGAACGATGACAGG
1 T-GGGAGAGGCCTCTTGAACGATGACAGG
4131559 TGAGTCGAGC
Statistics
Matches: 54, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
42 51 0.94
43 3 0.06
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.21
Consensus pattern (42 bp):
TGGGAGAGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGA
Found at i:4132079 original size:20 final size:20
Alignment explanation
Indices: 4132054--4132130 Score: 118
Period size: 20 Copynumber: 3.9 Consensus size: 20
4132044 ATCACAACAC
*
4132054 AAATGACTATCGCAACGTGA
1 AAATGACTATCGCAACGCGA
*
4132074 AAATGATTATCGCAACGCGA
1 AAATGACTATCGCAACGCGA
* *
4132094 AAATGATTATCGCAACGCAA
1 AAATGACTATCGCAACGCGA
4132114 AAATGACTATCGCAACG
1 AAATGACTATCGCAACG
4132131 AAAGAATCGC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGA
Found at i:4132200 original size:20 final size:20
Alignment explanation
Indices: 4132175--4132216 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
4132165 CTTTCGTTGT
4132175 GATAGTCAAATTCGCATTGC
1 GATAGTCAAATTCGCATTGC
**
4132195 GATAGTCATTTTCGCATTGC
1 GATAGTCAAATTCGCATTGC
4132215 GA
1 GA
4132217 AAGTAAACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (20 bp):
GATAGTCAAATTCGCATTGC
Found at i:4132387 original size:18 final size:18
Alignment explanation
Indices: 4132364--4132431 Score: 136
Period size: 18 Copynumber: 3.8 Consensus size: 18
4132354 TTTACTAAGC
4132364 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
4132382 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
4132400 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
4132418 AATCTAAGTGAAAT
1 AATCTAAGTGAAAT
4132432 TATGAGTAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 50 1.00
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (18 bp):
AATCTAAGTGAAATGGTT
Done.